This is a demo instance. You can upload any data you like, including test data to try things out. You can find test data to upload in the example data repository. This instance should not be used for analysis.

PPD_0047CBG.1

Display Name: USA/PPD_0047CBG.1/2024-09-03
Heibeck, N.

Submission details

Submission ID
PQ388217.1
Submitting group
Automated Ingest from INSDC/NCBI Virus by Loculus
Date submitted
2024-12-09 19:13:47 UTC
Date released
2024-12-09 19:28:57 UTC

Data use terms

Data use terms
OPEN

Data Use Terms History

ChangedUserData Use Terms
2024-12-09 19:14insdc_ingest_userOPEN
Data use terms URL
https://pathoplexus.org/about/terms-of-use/open-data

Authors

Author affiliations
Los Angeles County Department of Public Health, Los Angeles County Department of Public Health Laboratory

Clade & Lineage

Clade
IIb
Lineage
F.1
Outbreak
hMPXV-1

Alignment states and QC metrics

Completeness
88.10%
Length
194276
Total ambiguous nucs
2
Total deleted nucs
108
Total frame shifts
0
Total inserted nucs
49
Total SNPs
78
Total stop codons
0
Total unknown nucs
20591

Sample details

Collection country
USA
Collection date
2024-09-03
Collection date (lower bound)
2024-09-03
Collection date (upper bound)
2024-09-03
Isolate name
Monkeypox virus/Human/USA/CA-LACPHL-MA00690/2024

Host

Host name scientific
Homo sapiens
Host taxon id
9606

INSDC

INSDC accession
PQ388217.1
NCBI release date
2024-10-02
NCBI update date
2024-10-02

Nucleotide mutations

Substitutions

  • G2591A
  • G3111A
  • G3522A
  • C3818T
  • C7771T
  • G11668A
  • G14000T
  • G15428A
  • G16748A
  • G16767A
  • A18769G
  • G21723A
  • C23564T
  • G25661A
  • T28175C
  • G30367A
  • G31053A
  • G34459A
    • Deletions
    133177-133186, 179078-179175
    Insertions
    ins_133102:TTT, ins_174122:NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN

    Amino acid mutations

    Substitutions

    OPG002

  • OPG002:S54F

    • OPG003

  • OPG003:D264N

    • OPG025

  • OPG025:A423D

    • OPG029

  • OPG029:R108C

    • OPG047

  • OPG047:R48C

    • OPG053

  • OPG053:P78S

    • OPG056

  • OPG056:E125K

    • OPG057

  • OPG057:E353K

    • OPG071

  • OPG071:L108F

    • OPG072

  • OPG072:D56N

    • OPG092

  • OPG092:D196N

    • OPG093

  • OPG093:S30L
  • OPG093:D88N

    • OPG094

  • OPG094:M142I

    • OPG098

  • OPG098:E162K

    • OPG105

  • OPG105:S734L

    • OPG117

  • OPG117:S297L

    • OPG118

  • OPG118:K606E

    • OPG136

  • OPG136:D98N

    • OPG139

  • OPG139:A17T

    • OPG145

  • OPG145:E62K
  • OPG145:R243Q
  • OPG145:E435K

    • OPG176

  • OPG176:H221Y

    • OPG185

  • OPG185:T219I

    • OPG193

  • OPG193:L263F

    • OPG205

  • OPG205:R259K

    • OPG210

  • OPG210:D209N
  • OPG210:P722S
  • OPG210:M1741I
    • Deletions
    None
    Insertions
    None